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---
# Configuration file defining python specific libraries on pypi to install
# using easy install
pypi:
# infrastructure
- setuptools
- amqplib
- BeautifulSoup
- fabric
- Logbook
- lxml
- mako
- paste
- pastescript
- pycrypto
- python-cjson
- pyOpenSSL
- routes
- simplejson
- sphinx
- StarCluster
- webhelpers
- webob
- xlrd
# build
- Pyrex-real
- cython # needed for installing pybedtools
# concurrency/web
- Twisted
# science
- cutadapt
- ruffus
- DendroPy
- HTSeq
- pybedtools
- pygr
- PyVCF
- rpy2
- ramp
# databases
- CouchDB
- MySQL-python
- pymongo
- pysqlite
- psycopg2
# visualization
- gnuplot-py
- PIL
- pypdf
- reportlab
# cloudman
- oca
- hoover
- Mako
conda:
- boto
- biopython
- cython
- h5py
- ipython
- matplotlib
- networkx
- nose
- numpy
- pandas
- pysam
- pyyaml
- pyzmq
- scikit-learn
- scipy
- SQLAlchemy
- statsmodels
- tornado
## compile problems
#- cogent
#- tables
#- pygraphviz
#- pysparse
#- sympy
#- pydot # references python 3-only pyparsing
#- pygooglechart
#- rpy2-bioconductor-extensions